molstar 4.0.1 → 4.2.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (907) hide show
  1. package/LICENSE +20 -20
  2. package/README.md +197 -197
  3. package/build/viewer/embedded.html +52 -52
  4. package/build/viewer/index.html +129 -129
  5. package/build/viewer/molstar.js +1 -1
  6. package/build/viewer/molstar.js.LICENSE.txt +0 -9
  7. package/lib/apps/docking-viewer/index.html +36 -36
  8. package/lib/apps/docking-viewer/viewport.d.ts +8 -8
  9. package/lib/apps/mesoscale-explorer/behavior/camera.d.ts +1 -1
  10. package/lib/apps/mesoscale-explorer/behavior/select.d.ts +1 -1
  11. package/lib/apps/mesoscale-explorer/data/cellpack/model.d.ts +2 -2
  12. package/lib/apps/mesoscale-explorer/data/cellpack/preset.d.ts +1 -1
  13. package/lib/apps/mesoscale-explorer/data/cellpack/preset.js +5 -5
  14. package/lib/apps/mesoscale-explorer/data/generic/preset.d.ts +1 -1
  15. package/lib/apps/mesoscale-explorer/data/generic/preset.js +3 -3
  16. package/lib/apps/mesoscale-explorer/data/mmcif/preset.d.ts +1 -1
  17. package/lib/apps/mesoscale-explorer/data/mmcif/preset.js +3 -3
  18. package/lib/apps/mesoscale-explorer/data/petworld/preset.d.ts +1 -1
  19. package/lib/apps/mesoscale-explorer/data/petworld/preset.js +3 -3
  20. package/lib/apps/mesoscale-explorer/data/state.d.ts +19 -10
  21. package/lib/apps/mesoscale-explorer/data/state.js +14 -2
  22. package/lib/apps/mesoscale-explorer/index.html +100 -100
  23. package/lib/apps/mesoscale-explorer/style.scss +33 -33
  24. package/lib/apps/mesoscale-explorer/ui/entities.d.ts +19 -13
  25. package/lib/apps/mesoscale-explorer/ui/entities.js +23 -4
  26. package/lib/apps/viewer/app.d.ts +30 -24
  27. package/lib/apps/viewer/app.js +6 -6
  28. package/lib/apps/viewer/embedded.html +52 -52
  29. package/lib/apps/viewer/index.html +129 -129
  30. package/lib/cli/chem-comp-dict/create-ions.js +9 -9
  31. package/lib/cli/chem-comp-dict/create-saccharides.js +9 -9
  32. package/lib/cli/chem-comp-dict/util.d.ts +112 -112
  33. package/lib/cli/cifschema/util/cif-dic.js +1 -0
  34. package/lib/cli/cifschema/util/generate.js +12 -12
  35. package/lib/cli/lipid-params/index.js +9 -9
  36. package/lib/cli/mvs/mvs-print-schema.d.ts +1 -0
  37. package/lib/cli/mvs/mvs-print-schema.js +1 -0
  38. package/lib/cli/mvs/mvs-render.d.ts +1 -0
  39. package/lib/cli/mvs/mvs-render.js +1 -0
  40. package/lib/cli/mvs/mvs-validate.d.ts +1 -0
  41. package/lib/cli/mvs/mvs-validate.js +1 -0
  42. package/lib/commonjs/apps/docking-viewer/viewport.d.ts +8 -8
  43. package/lib/commonjs/apps/mesoscale-explorer/behavior/camera.d.ts +1 -1
  44. package/lib/commonjs/apps/mesoscale-explorer/behavior/select.d.ts +1 -1
  45. package/lib/commonjs/apps/mesoscale-explorer/data/cellpack/model.d.ts +2 -2
  46. package/lib/commonjs/apps/mesoscale-explorer/data/cellpack/preset.d.ts +1 -1
  47. package/lib/commonjs/apps/mesoscale-explorer/data/cellpack/preset.js +5 -5
  48. package/lib/commonjs/apps/mesoscale-explorer/data/generic/preset.d.ts +1 -1
  49. package/lib/commonjs/apps/mesoscale-explorer/data/generic/preset.js +3 -3
  50. package/lib/commonjs/apps/mesoscale-explorer/data/mmcif/preset.d.ts +1 -1
  51. package/lib/commonjs/apps/mesoscale-explorer/data/mmcif/preset.js +3 -3
  52. package/lib/commonjs/apps/mesoscale-explorer/data/petworld/preset.d.ts +1 -1
  53. package/lib/commonjs/apps/mesoscale-explorer/data/petworld/preset.js +3 -3
  54. package/lib/commonjs/apps/mesoscale-explorer/data/state.d.ts +19 -10
  55. package/lib/commonjs/apps/mesoscale-explorer/data/state.js +15 -3
  56. package/lib/commonjs/apps/mesoscale-explorer/ui/entities.d.ts +19 -13
  57. package/lib/commonjs/apps/mesoscale-explorer/ui/entities.js +22 -3
  58. package/lib/commonjs/apps/viewer/app.d.ts +30 -24
  59. package/lib/commonjs/apps/viewer/app.js +6 -6
  60. package/lib/commonjs/cli/chem-comp-dict/create-ions.js +9 -9
  61. package/lib/commonjs/cli/chem-comp-dict/create-saccharides.js +9 -9
  62. package/lib/commonjs/cli/chem-comp-dict/util.d.ts +112 -112
  63. package/lib/commonjs/cli/cifschema/util/cif-dic.js +1 -0
  64. package/lib/commonjs/cli/cifschema/util/generate.js +12 -12
  65. package/lib/commonjs/cli/lipid-params/index.js +9 -9
  66. package/lib/commonjs/cli/mvs/mvs-print-schema.d.ts +1 -0
  67. package/lib/commonjs/cli/mvs/mvs-print-schema.js +1 -0
  68. package/lib/commonjs/cli/mvs/mvs-render.d.ts +1 -0
  69. package/lib/commonjs/cli/mvs/mvs-render.js +1 -0
  70. package/lib/commonjs/cli/mvs/mvs-validate.d.ts +1 -0
  71. package/lib/commonjs/cli/mvs/mvs-validate.js +1 -0
  72. package/lib/commonjs/examples/alpha-orbitals/example-data.js +160 -160
  73. package/lib/commonjs/extensions/alpha-orbitals/gpu/shader.frag.js +136 -136
  74. package/lib/commonjs/extensions/alpha-orbitals/transforms.d.ts +2 -2
  75. package/lib/commonjs/extensions/anvil/behavior.d.ts +10 -9
  76. package/lib/commonjs/extensions/anvil/representation.d.ts +5 -0
  77. package/lib/commonjs/extensions/assembly-symmetry/behavior.d.ts +2 -1
  78. package/lib/commonjs/extensions/assembly-symmetry/prop.js +24 -24
  79. package/lib/commonjs/extensions/assembly-symmetry/representation.d.ts +1 -0
  80. package/lib/commonjs/extensions/backgrounds/index.d.ts +2 -2
  81. package/lib/commonjs/extensions/backgrounds/index.js +2 -1
  82. package/lib/commonjs/extensions/dnatco/behavior.d.ts +1 -1
  83. package/lib/commonjs/extensions/dnatco/confal-pyramids/behavior.d.ts +10 -10
  84. package/lib/commonjs/extensions/dnatco/confal-pyramids/behavior.js +5 -5
  85. package/lib/commonjs/extensions/dnatco/confal-pyramids/representation.d.ts +3 -0
  86. package/lib/commonjs/extensions/dnatco/ntc-tube/behavior.d.ts +10 -10
  87. package/lib/commonjs/extensions/dnatco/ntc-tube/behavior.js +5 -5
  88. package/lib/commonjs/extensions/dnatco/ntc-tube/representation.d.ts +3 -0
  89. package/lib/commonjs/extensions/g3d/format.d.ts +6 -6
  90. package/lib/commonjs/extensions/geo-export/glb-exporter.d.ts +1 -1
  91. package/lib/commonjs/extensions/geo-export/glb-exporter.js +6 -4
  92. package/lib/commonjs/extensions/geo-export/index.d.ts +1 -1
  93. package/lib/commonjs/extensions/geo-export/usdz-exporter.js +41 -41
  94. package/lib/commonjs/extensions/meshes/mesh-extension.d.ts +2 -3
  95. package/lib/commonjs/extensions/meshes/mesh-streaming/behavior.d.ts +1 -1
  96. package/lib/commonjs/extensions/meshes/mesh-streaming/server-info.d.ts +2 -2
  97. package/lib/commonjs/extensions/model-archive/quality-assessment/behavior.d.ts +9 -9
  98. package/lib/commonjs/extensions/model-export/index.d.ts +1 -1
  99. package/lib/commonjs/extensions/mp4-export/index.d.ts +1 -1
  100. package/lib/commonjs/extensions/mvs/behavior.d.ts +1 -1
  101. package/lib/commonjs/extensions/mvs/camera.d.ts +2 -0
  102. package/lib/commonjs/extensions/mvs/camera.js +29 -2
  103. package/lib/commonjs/extensions/mvs/components/annotation-label/representation.d.ts +4 -0
  104. package/lib/commonjs/extensions/mvs/components/annotation-label/visual.d.ts +1 -0
  105. package/lib/commonjs/extensions/mvs/components/custom-label/representation.d.ts +4 -2
  106. package/lib/commonjs/extensions/mvs/components/custom-label/visual.d.ts +1 -0
  107. package/lib/commonjs/extensions/mvs/components/formats.d.ts +6 -4
  108. package/lib/commonjs/extensions/mvs/components/formats.js +2 -1
  109. package/lib/commonjs/extensions/mvs/load-helpers.d.ts +1 -1
  110. package/lib/commonjs/extensions/mvs/load.d.ts +2 -0
  111. package/lib/commonjs/extensions/mvs/load.js +12 -6
  112. package/lib/commonjs/extensions/mvs/tree/mvs/mvs-builder.d.ts +2 -8
  113. package/lib/commonjs/extensions/pdbe/structure-quality-report/behavior.d.ts +1 -1
  114. package/lib/commonjs/extensions/rcsb/validation-report/behavior.d.ts +22 -22
  115. package/lib/commonjs/extensions/rcsb/validation-report/representation.d.ts +5 -0
  116. package/lib/commonjs/extensions/sb-ncbr/partial-charges/behavior.d.ts +1 -1
  117. package/lib/commonjs/extensions/sb-ncbr/partial-charges/preset.d.ts +4 -4
  118. package/lib/commonjs/extensions/volumes-and-segmentations/entry-meshes.d.ts +1 -1
  119. package/lib/commonjs/extensions/volumes-and-segmentations/entry-root.d.ts +5 -5
  120. package/lib/commonjs/extensions/volumes-and-segmentations/entry-segmentation.d.ts +1 -1
  121. package/lib/commonjs/extensions/volumes-and-segmentations/entry-state.d.ts +2 -2
  122. package/lib/commonjs/extensions/volumes-and-segmentations/global-state.d.ts +2 -2
  123. package/lib/commonjs/extensions/volumes-and-segmentations/helpers.d.ts +1 -1
  124. package/lib/commonjs/extensions/volumes-and-segmentations/index.d.ts +1 -1
  125. package/lib/commonjs/extensions/wwpdb/ccd/behavior.d.ts +1 -1
  126. package/lib/commonjs/extensions/wwpdb/ccd/representation.d.ts +4 -4
  127. package/lib/commonjs/extensions/zenodo/index.d.ts +1 -1
  128. package/lib/commonjs/mol-canvas3d/canvas3d.d.ts +14 -2
  129. package/lib/commonjs/mol-canvas3d/canvas3d.js +2 -2
  130. package/lib/commonjs/mol-canvas3d/controls/trackball.js +1 -1
  131. package/lib/commonjs/mol-canvas3d/helper/handle-helper.d.ts +1 -0
  132. package/lib/commonjs/mol-canvas3d/helper/helper.d.ts +2 -0
  133. package/lib/commonjs/mol-canvas3d/passes/background.d.ts +6 -1
  134. package/lib/commonjs/mol-canvas3d/passes/background.js +13 -1
  135. package/lib/commonjs/mol-canvas3d/passes/bloom.d.ts +37 -0
  136. package/lib/commonjs/mol-canvas3d/passes/bloom.js +272 -0
  137. package/lib/commonjs/mol-canvas3d/passes/dpoit.js +4 -2
  138. package/lib/commonjs/mol-canvas3d/passes/draw.d.ts +11 -7
  139. package/lib/commonjs/mol-canvas3d/passes/draw.js +29 -3
  140. package/lib/commonjs/mol-canvas3d/passes/image.d.ts +6 -0
  141. package/lib/commonjs/mol-canvas3d/passes/postprocessing.d.ts +31 -5
  142. package/lib/commonjs/mol-canvas3d/passes/postprocessing.js +35 -40
  143. package/lib/commonjs/mol-geo/geometry/base.d.ts +3 -1
  144. package/lib/commonjs/mol-geo/geometry/base.js +4 -1
  145. package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.d.ts +2 -1
  146. package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.js +4 -1
  147. package/lib/commonjs/mol-geo/geometry/direct-volume/direct-volume.d.ts +2 -1
  148. package/lib/commonjs/mol-geo/geometry/direct-volume/direct-volume.js +4 -1
  149. package/lib/commonjs/mol-geo/geometry/emissive-data.d.ts +26 -0
  150. package/lib/commonjs/mol-geo/geometry/emissive-data.js +80 -0
  151. package/lib/commonjs/mol-geo/geometry/image/image.d.ts +2 -1
  152. package/lib/commonjs/mol-geo/geometry/image/image.js +4 -1
  153. package/lib/commonjs/mol-geo/geometry/lines/lines.d.ts +3 -2
  154. package/lib/commonjs/mol-geo/geometry/lines/lines.js +4 -1
  155. package/lib/commonjs/mol-geo/geometry/mesh/color-smoothing.d.ts +2 -1
  156. package/lib/commonjs/mol-geo/geometry/mesh/color-smoothing.js +36 -2
  157. package/lib/commonjs/mol-geo/geometry/mesh/mesh.d.ts +2 -1
  158. package/lib/commonjs/mol-geo/geometry/mesh/mesh.js +11 -4
  159. package/lib/commonjs/mol-geo/geometry/points/points.d.ts +3 -2
  160. package/lib/commonjs/mol-geo/geometry/points/points.js +4 -1
  161. package/lib/commonjs/mol-geo/geometry/spheres/spheres.d.ts +2 -2
  162. package/lib/commonjs/mol-geo/geometry/spheres/spheres.js +7 -3
  163. package/lib/commonjs/mol-geo/geometry/text/text.d.ts +2 -1
  164. package/lib/commonjs/mol-geo/geometry/text/text.js +4 -1
  165. package/lib/commonjs/mol-geo/geometry/texture-mesh/color-smoothing.d.ts +2 -1
  166. package/lib/commonjs/mol-geo/geometry/texture-mesh/color-smoothing.js +34 -2
  167. package/lib/commonjs/mol-geo/geometry/texture-mesh/texture-mesh.d.ts +3 -1
  168. package/lib/commonjs/mol-geo/geometry/texture-mesh/texture-mesh.js +14 -4
  169. package/lib/commonjs/mol-geo/util/location-iterator.d.ts +5 -2
  170. package/lib/commonjs/mol-geo/util/location-iterator.js +8 -3
  171. package/lib/commonjs/mol-gl/renderable/cylinders.d.ts +10 -0
  172. package/lib/commonjs/mol-gl/renderable/direct-volume.d.ts +10 -0
  173. package/lib/commonjs/mol-gl/renderable/image.d.ts +10 -0
  174. package/lib/commonjs/mol-gl/renderable/lines.d.ts +10 -0
  175. package/lib/commonjs/mol-gl/renderable/mesh.d.ts +10 -0
  176. package/lib/commonjs/mol-gl/renderable/points.d.ts +10 -0
  177. package/lib/commonjs/mol-gl/renderable/schema.d.ts +24 -1
  178. package/lib/commonjs/mol-gl/renderable/schema.js +15 -2
  179. package/lib/commonjs/mol-gl/renderable/spheres.d.ts +10 -0
  180. package/lib/commonjs/mol-gl/renderable/text.d.ts +10 -0
  181. package/lib/commonjs/mol-gl/renderable/texture-mesh.d.ts +10 -0
  182. package/lib/commonjs/mol-gl/renderable.d.ts +1 -1
  183. package/lib/commonjs/mol-gl/renderable.js +2 -2
  184. package/lib/commonjs/mol-gl/renderer.d.ts +2 -1
  185. package/lib/commonjs/mol-gl/renderer.js +58 -49
  186. package/lib/commonjs/mol-gl/scene.d.ts +3 -1
  187. package/lib/commonjs/mol-gl/scene.js +26 -1
  188. package/lib/commonjs/mol-gl/shader/background.frag.d.ts +1 -1
  189. package/lib/commonjs/mol-gl/shader/background.frag.js +95 -94
  190. package/lib/commonjs/mol-gl/shader/background.vert.js +11 -11
  191. package/lib/commonjs/mol-gl/shader/blend-back-dpoit.frag.js +13 -13
  192. package/lib/commonjs/mol-gl/shader/bloom/blur.frag.d.ts +1 -0
  193. package/lib/commonjs/mol-gl/shader/bloom/blur.frag.js +32 -0
  194. package/lib/commonjs/mol-gl/shader/bloom/composite.frag.d.ts +1 -0
  195. package/lib/commonjs/mol-gl/shader/bloom/composite.frag.js +37 -0
  196. package/lib/commonjs/mol-gl/shader/bloom/luminosity.frag.d.ts +1 -0
  197. package/lib/commonjs/mol-gl/shader/bloom/luminosity.frag.js +56 -0
  198. package/lib/commonjs/mol-gl/shader/cas.frag.js +144 -144
  199. package/lib/commonjs/mol-gl/shader/chunks/apply-fog.glsl.js +31 -31
  200. package/lib/commonjs/mol-gl/shader/chunks/apply-interior-color.glsl.js +12 -12
  201. package/lib/commonjs/mol-gl/shader/chunks/apply-light-color.glsl.d.ts +2 -2
  202. package/lib/commonjs/mol-gl/shader/chunks/apply-light-color.glsl.js +78 -70
  203. package/lib/commonjs/mol-gl/shader/chunks/apply-marker-color.glsl.js +16 -16
  204. package/lib/commonjs/mol-gl/shader/chunks/assign-clipping-varying.glsl.js +8 -8
  205. package/lib/commonjs/mol-gl/shader/chunks/assign-color-varying.glsl.d.ts +1 -1
  206. package/lib/commonjs/mol-gl/shader/chunks/assign-color-varying.glsl.js +140 -112
  207. package/lib/commonjs/mol-gl/shader/chunks/assign-group.glsl.js +6 -6
  208. package/lib/commonjs/mol-gl/shader/chunks/assign-marker-varying.glsl.js +8 -8
  209. package/lib/commonjs/mol-gl/shader/chunks/assign-material-color.glsl.d.ts +1 -1
  210. package/lib/commonjs/mol-gl/shader/chunks/assign-material-color.glsl.js +112 -123
  211. package/lib/commonjs/mol-gl/shader/chunks/assign-position.glsl.js +14 -14
  212. package/lib/commonjs/mol-gl/shader/chunks/assign-size.glsl.js +18 -18
  213. package/lib/commonjs/mol-gl/shader/chunks/check-picking-alpha.glsl.js +12 -12
  214. package/lib/commonjs/mol-gl/shader/chunks/check-transparency.glsl.d.ts +1 -0
  215. package/lib/commonjs/mol-gl/shader/chunks/check-transparency.glsl.js +20 -0
  216. package/lib/commonjs/mol-gl/shader/chunks/clip-instance.glsl.js +7 -7
  217. package/lib/commonjs/mol-gl/shader/chunks/clip-pixel.glsl.js +5 -5
  218. package/lib/commonjs/mol-gl/shader/chunks/color-frag-params.glsl.d.ts +1 -1
  219. package/lib/commonjs/mol-gl/shader/chunks/color-frag-params.glsl.js +60 -51
  220. package/lib/commonjs/mol-gl/shader/chunks/color-vert-params.glsl.d.ts +1 -1
  221. package/lib/commonjs/mol-gl/shader/chunks/color-vert-params.glsl.js +122 -92
  222. package/lib/commonjs/mol-gl/shader/chunks/common-clip.glsl.js +104 -104
  223. package/lib/commonjs/mol-gl/shader/chunks/common-frag-params.glsl.d.ts +1 -1
  224. package/lib/commonjs/mol-gl/shader/chunks/common-frag-params.glsl.js +150 -149
  225. package/lib/commonjs/mol-gl/shader/chunks/common-vert-params.glsl.js +61 -61
  226. package/lib/commonjs/mol-gl/shader/chunks/common.glsl.js +234 -234
  227. package/lib/commonjs/mol-gl/shader/chunks/dpoit-write.glsl.js +62 -62
  228. package/lib/commonjs/mol-gl/shader/chunks/fade-lod.glsl.js +42 -42
  229. package/lib/commonjs/mol-gl/shader/chunks/float-to-rgba.glsl.js +39 -39
  230. package/lib/commonjs/mol-gl/shader/chunks/light-frag-params.glsl.js +127 -127
  231. package/lib/commonjs/mol-gl/shader/chunks/matrix-scale.glsl.js +5 -5
  232. package/lib/commonjs/mol-gl/shader/chunks/normal-frag-params.glsl.js +2 -2
  233. package/lib/commonjs/mol-gl/shader/chunks/read-from-texture.glsl.js +14 -14
  234. package/lib/commonjs/mol-gl/shader/chunks/rgba-to-float.glsl.js +84 -84
  235. package/lib/commonjs/mol-gl/shader/chunks/size-vert-params.glsl.js +11 -11
  236. package/lib/commonjs/mol-gl/shader/chunks/texture3d-from-1d-trilinear.glsl.js +23 -23
  237. package/lib/commonjs/mol-gl/shader/chunks/texture3d-from-2d-linear.glsl.js +17 -17
  238. package/lib/commonjs/mol-gl/shader/chunks/texture3d-from-2d-nearest.glsl.js +8 -8
  239. package/lib/commonjs/mol-gl/shader/chunks/wboit-write.glsl.js +25 -25
  240. package/lib/commonjs/mol-gl/shader/compose.frag.js +12 -12
  241. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/accumulate.frag.js +23 -23
  242. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/accumulate.vert.js +43 -43
  243. package/lib/commonjs/mol-gl/shader/compute/color-smoothing/normalize.frag.js +15 -15
  244. package/lib/commonjs/mol-gl/shader/copy.frag.js +11 -11
  245. package/lib/commonjs/mol-gl/shader/cylinders.frag.d.ts +2 -2
  246. package/lib/commonjs/mol-gl/shader/cylinders.frag.js +267 -264
  247. package/lib/commonjs/mol-gl/shader/cylinders.vert.js +89 -89
  248. package/lib/commonjs/mol-gl/shader/depth-merge.frag.js +23 -23
  249. package/lib/commonjs/mol-gl/shader/direct-volume.frag.d.ts +1 -1
  250. package/lib/commonjs/mol-gl/shader/direct-volume.frag.js +362 -356
  251. package/lib/commonjs/mol-gl/shader/direct-volume.vert.js +41 -41
  252. package/lib/commonjs/mol-gl/shader/evaluate-dpoit.frag.js +10 -10
  253. package/lib/commonjs/mol-gl/shader/evaluate-wboit.frag.js +17 -17
  254. package/lib/commonjs/mol-gl/shader/fxaa.frag.js +228 -228
  255. package/lib/commonjs/mol-gl/shader/gaussian-density.frag.js +49 -49
  256. package/lib/commonjs/mol-gl/shader/gaussian-density.vert.js +27 -27
  257. package/lib/commonjs/mol-gl/shader/hi-z.frag.js +18 -18
  258. package/lib/commonjs/mol-gl/shader/histogram-pyramid/reduction.frag.js +58 -58
  259. package/lib/commonjs/mol-gl/shader/histogram-pyramid/sum.frag.js +19 -19
  260. package/lib/commonjs/mol-gl/shader/image.frag.d.ts +2 -2
  261. package/lib/commonjs/mol-gl/shader/image.frag.js +170 -161
  262. package/lib/commonjs/mol-gl/shader/image.vert.js +21 -21
  263. package/lib/commonjs/mol-gl/shader/lines.frag.d.ts +2 -2
  264. package/lib/commonjs/mol-gl/shader/lines.frag.js +43 -40
  265. package/lib/commonjs/mol-gl/shader/lines.vert.js +117 -117
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  821. package/lib/mol-repr/shape/loci/common.d.ts +1 -0
  822. package/lib/mol-repr/shape/loci/dihedral.d.ts +1 -0
  823. package/lib/mol-repr/shape/loci/distance.d.ts +1 -0
  824. package/lib/mol-repr/shape/loci/label.d.ts +1 -0
  825. package/lib/mol-repr/shape/loci/orientation.d.ts +1 -0
  826. package/lib/mol-repr/shape/loci/plane.d.ts +1 -0
  827. package/lib/mol-repr/shape/model/unitcell.d.ts +1 -0
  828. package/lib/mol-repr/structure/complex-representation.d.ts +1 -1
  829. package/lib/mol-repr/structure/complex-representation.js +7 -1
  830. package/lib/mol-repr/structure/complex-visual.d.ts +8 -1
  831. package/lib/mol-repr/structure/complex-visual.js +5 -1
  832. package/lib/mol-repr/structure/params.d.ts +8 -0
  833. package/lib/mol-repr/structure/registry.d.ts +14 -0
  834. package/lib/mol-repr/structure/representation/backbone.d.ts +3 -0
  835. package/lib/mol-repr/structure/representation/ball-and-stick.d.ts +3 -0
  836. package/lib/mol-repr/structure/representation/carbohydrate.d.ts +3 -0
  837. package/lib/mol-repr/structure/representation/cartoon.d.ts +3 -0
  838. package/lib/mol-repr/structure/representation/ellipsoid.d.ts +3 -0
  839. package/lib/mol-repr/structure/representation/gaussian-surface.d.ts +3 -0
  840. package/lib/mol-repr/structure/representation/gaussian-volume.d.ts +3 -0
  841. package/lib/mol-repr/structure/representation/label.d.ts +3 -0
  842. package/lib/mol-repr/structure/representation/line.d.ts +3 -0
  843. package/lib/mol-repr/structure/representation/molecular-surface.d.ts +3 -0
  844. package/lib/mol-repr/structure/representation/orientation.d.ts +3 -0
  845. package/lib/mol-repr/structure/representation/point.d.ts +3 -0
  846. package/lib/mol-repr/structure/representation/putty.d.ts +3 -0
  847. package/lib/mol-repr/structure/representation/spacefill.d.ts +3 -0
  848. package/lib/mol-repr/structure/units-representation.d.ts +1 -1
  849. package/lib/mol-repr/structure/units-representation.js +9 -3
  850. package/lib/mol-repr/structure/units-visual.d.ts +9 -1
  851. package/lib/mol-repr/structure/units-visual.js +5 -1
  852. package/lib/mol-repr/structure/visual/bond-inter-unit-cylinder.d.ts +2 -0
  853. package/lib/mol-repr/structure/visual/bond-inter-unit-line.d.ts +1 -0
  854. package/lib/mol-repr/structure/visual/bond-intra-unit-cylinder.d.ts +2 -0
  855. package/lib/mol-repr/structure/visual/bond-intra-unit-line.d.ts +1 -0
  856. package/lib/mol-repr/structure/visual/carbohydrate-link-cylinder.d.ts +1 -0
  857. package/lib/mol-repr/structure/visual/carbohydrate-symbol-mesh.d.ts +1 -0
  858. package/lib/mol-repr/structure/visual/carbohydrate-terminal-link-cylinder.d.ts +1 -0
  859. package/lib/mol-repr/structure/visual/element-cross.d.ts +1 -0
  860. package/lib/mol-repr/structure/visual/element-point.d.ts +1 -0
  861. package/lib/mol-repr/structure/visual/element-sphere.d.ts +4 -0
  862. package/lib/mol-repr/structure/visual/ellipsoid-mesh.d.ts +1 -0
  863. package/lib/mol-repr/structure/visual/gaussian-density-volume.d.ts +2 -0
  864. package/lib/mol-repr/structure/visual/gaussian-surface-mesh.d.ts +4 -0
  865. package/lib/mol-repr/structure/visual/gaussian-surface-mesh.js +1 -1
  866. package/lib/mol-repr/structure/visual/gaussian-surface-wireframe.d.ts +1 -0
  867. package/lib/mol-repr/structure/visual/label-text.d.ts +1 -0
  868. package/lib/mol-repr/structure/visual/molecular-surface-mesh.d.ts +1 -0
  869. package/lib/mol-repr/structure/visual/molecular-surface-wireframe.d.ts +1 -0
  870. package/lib/mol-repr/structure/visual/nucleotide-atomic-bond.d.ts +2 -0
  871. package/lib/mol-repr/structure/visual/nucleotide-atomic-element.d.ts +2 -0
  872. package/lib/mol-repr/structure/visual/nucleotide-atomic-ring-fill.d.ts +1 -0
  873. package/lib/mol-repr/structure/visual/nucleotide-block-mesh.d.ts +1 -0
  874. package/lib/mol-repr/structure/visual/nucleotide-ring-mesh.d.ts +1 -0
  875. package/lib/mol-repr/structure/visual/orientation-ellipsoid-mesh.d.ts +1 -0
  876. package/lib/mol-repr/structure/visual/polymer-backbone-cylinder.d.ts +2 -0
  877. package/lib/mol-repr/structure/visual/polymer-backbone-sphere.d.ts +2 -0
  878. package/lib/mol-repr/structure/visual/polymer-direction-wedge.d.ts +1 -0
  879. package/lib/mol-repr/structure/visual/polymer-gap-cylinder.d.ts +1 -0
  880. package/lib/mol-repr/structure/visual/polymer-trace-mesh.d.ts +1 -0
  881. package/lib/mol-repr/structure/visual/polymer-tube-mesh.d.ts +1 -0
  882. package/lib/mol-repr/visual.d.ts +6 -1
  883. package/lib/mol-repr/visual.js +57 -3
  884. package/lib/mol-repr/volume/direct-volume.d.ts +3 -0
  885. package/lib/mol-repr/volume/isosurface.d.ts +6 -0
  886. package/lib/mol-repr/volume/registry.d.ts +4 -0
  887. package/lib/mol-repr/volume/representation.d.ts +2 -1
  888. package/lib/mol-repr/volume/representation.js +9 -2
  889. package/lib/mol-repr/volume/segment.d.ts +5 -0
  890. package/lib/mol-repr/volume/slice.d.ts +3 -0
  891. package/lib/mol-script/language/symbol-table/core.d.ts +3 -3
  892. package/lib/mol-state/tree/immutable.d.ts +1 -1
  893. package/lib/mol-state/tree/transient.d.ts +2 -2
  894. package/lib/mol-theme/color/external-volume.d.ts +3 -1
  895. package/lib/mol-theme/color/external-volume.js +8 -2
  896. package/lib/mol-theme/color.d.ts +1 -0
  897. package/lib/mol-theme/emissive.d.ts +40 -0
  898. package/lib/mol-theme/emissive.js +134 -0
  899. package/lib/mol-theme/substance.d.ts +1 -1
  900. package/lib/mol-theme/substance.js +2 -2
  901. package/lib/mol-theme/transparency.d.ts +0 -1
  902. package/lib/mol-util/input/input-observer.js +2 -0
  903. package/lib/mol-util/set.d.ts +1 -1
  904. package/lib/mol-util/set.js +17 -1
  905. package/lib/servers/common/swagger-ui/indexTemplate.js +66 -66
  906. package/lib/servers/volume/config.js +5 -5
  907. package/package.json +195 -193
@@ -1,6 +1,6 @@
1
1
  /**
2
- * Copyright (c) 2019-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
2
+ * Copyright (c) 2019-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
4
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
5
5
  */
6
- export declare const text_frag = "\nprecision highp float;\nprecision highp int;\n\n#include common\n#include common_frag_params\n#include color_frag_params\n#include common_clip\n\nuniform sampler2D tFont;\n\nuniform vec3 uBorderColor;\nuniform float uBorderWidth;\nuniform vec3 uBackgroundColor;\nuniform float uBackgroundOpacity;\n\nvarying vec2 vTexCoord;\n\nconst float smoothness = 32.0;\nconst float gamma = 2.2;\n\nvoid main2(){\n gl_FragColor = vec4(1.0, 0.0, 0.0, 1.0);\n}\n\nvoid main(){\n #include fade_lod\n #include clip_pixel\n\n float fragmentDepth = gl_FragCoord.z;\n #include assign_material_color\n\n if (vTexCoord.x > 1.0) {\n #if defined(dRenderVariant_color)\n material = vec4(uBackgroundColor, uBackgroundOpacity * material.a);\n #endif\n } else {\n // retrieve signed distance\n float sdf = texture2D(tFont, vTexCoord).a + uBorderWidth;\n\n // perform adaptive anti-aliasing of the edges\n float w = clamp(smoothness * (abs(dFdx(vTexCoord.x)) + abs(dFdy(vTexCoord.y))), 0.0, 0.5);\n float a = smoothstep(0.5 - w, 0.5 + w, sdf);\n\n // gamma correction for linear attenuation\n a = pow(a, 1.0 / gamma);\n\n if (a < 0.5) discard;\n\n #if defined(dRenderVariant_color)\n material.a *= a;\n\n // add border\n float t = 0.5 + uBorderWidth;\n if (uBorderWidth > 0.0 && sdf < t) {\n material.xyz = mix(uBorderColor, material.xyz, smoothstep(t - w, t, sdf));\n }\n #endif\n }\n\n #if defined(dRenderVariant_pick)\n #include check_picking_alpha\n #ifdef requiredDrawBuffers\n gl_FragColor = vObject;\n gl_FragData[1] = vInstance;\n gl_FragData[2] = vGroup;\n gl_FragData[3] = packDepthToRGBA(fragmentDepth);\n #else\n gl_FragColor = vColor;\n #endif\n #elif defined(dRenderVariant_depth)\n gl_FragColor = material;\n #elif defined(dRenderVariant_marking)\n gl_FragColor = material;\n #elif defined(dRenderVariant_color)\n gl_FragColor = material;\n\n #include apply_marker_color\n #include apply_fog\n #include wboit_write\n #include dpoit_write\n #endif\n}\n";
6
+ export declare const text_frag = "\nprecision highp float;\nprecision highp int;\n\n#include common\n#include common_frag_params\n#include color_frag_params\n#include common_clip\n\nuniform sampler2D tFont;\n\nuniform vec3 uBorderColor;\nuniform float uBorderWidth;\nuniform vec3 uBackgroundColor;\nuniform float uBackgroundOpacity;\n\nvarying vec2 vTexCoord;\n\nconst float smoothness = 32.0;\nconst float gamma = 2.2;\n\nvoid main2(){\n gl_FragColor = vec4(1.0, 0.0, 0.0, 1.0);\n}\n\nvoid main(){\n #include fade_lod\n #include clip_pixel\n\n float fragmentDepth = gl_FragCoord.z;\n #include assign_material_color\n\n if (vTexCoord.x > 1.0) {\n #if defined(dRenderVariant_color)\n material = vec4(uBackgroundColor, uBackgroundOpacity * material.a);\n #endif\n } else {\n // retrieve signed distance\n float sdf = texture2D(tFont, vTexCoord).a + uBorderWidth;\n\n // perform adaptive anti-aliasing of the edges\n float w = clamp(smoothness * (abs(dFdx(vTexCoord.x)) + abs(dFdy(vTexCoord.y))), 0.0, 0.5);\n float a = clamp(0.0, 1.0, smoothstep(0.5 - w, 0.5 + w, sdf));\n\n // gamma correction for linear attenuation\n a = pow(a, 1.0 / gamma);\n\n if (a < 0.5) discard;\n\n #if defined(dRenderVariant_color)\n // add border\n float t = 0.5 + uBorderWidth;\n if (uBorderWidth > 0.0 && sdf < t) {\n material.xyz = mix(uBorderColor, material.xyz, smoothstep(t - w, t, sdf));\n }\n #endif\n }\n\n #include check_transparency\n\n #if defined(dRenderVariant_pick)\n #include check_picking_alpha\n #ifdef requiredDrawBuffers\n gl_FragColor = vObject;\n gl_FragData[1] = vInstance;\n gl_FragData[2] = vGroup;\n gl_FragData[3] = packDepthToRGBA(fragmentDepth);\n #else\n gl_FragColor = vColor;\n #endif\n #elif defined(dRenderVariant_depth)\n gl_FragColor = material;\n #elif defined(dRenderVariant_marking)\n gl_FragColor = material;\n #elif defined(dRenderVariant_emissive)\n gl_FragColor = material;\n #elif defined(dRenderVariant_color)\n gl_FragColor = material;\n\n #include apply_marker_color\n #include apply_fog\n #include wboit_write\n #include dpoit_write\n #endif\n}\n";
@@ -1,89 +1,91 @@
1
1
  /**
2
- * Copyright (c) 2019-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
2
+ * Copyright (c) 2019-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
4
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
5
5
  */
6
- export const text_frag = `
7
- precision highp float;
8
- precision highp int;
9
-
10
- #include common
11
- #include common_frag_params
12
- #include color_frag_params
13
- #include common_clip
14
-
15
- uniform sampler2D tFont;
16
-
17
- uniform vec3 uBorderColor;
18
- uniform float uBorderWidth;
19
- uniform vec3 uBackgroundColor;
20
- uniform float uBackgroundOpacity;
21
-
22
- varying vec2 vTexCoord;
23
-
24
- const float smoothness = 32.0;
25
- const float gamma = 2.2;
26
-
27
- void main2(){
28
- gl_FragColor = vec4(1.0, 0.0, 0.0, 1.0);
29
- }
30
-
31
- void main(){
32
- #include fade_lod
33
- #include clip_pixel
34
-
35
- float fragmentDepth = gl_FragCoord.z;
36
- #include assign_material_color
37
-
38
- if (vTexCoord.x > 1.0) {
39
- #if defined(dRenderVariant_color)
40
- material = vec4(uBackgroundColor, uBackgroundOpacity * material.a);
41
- #endif
42
- } else {
43
- // retrieve signed distance
44
- float sdf = texture2D(tFont, vTexCoord).a + uBorderWidth;
45
-
46
- // perform adaptive anti-aliasing of the edges
47
- float w = clamp(smoothness * (abs(dFdx(vTexCoord.x)) + abs(dFdy(vTexCoord.y))), 0.0, 0.5);
48
- float a = smoothstep(0.5 - w, 0.5 + w, sdf);
49
-
50
- // gamma correction for linear attenuation
51
- a = pow(a, 1.0 / gamma);
52
-
53
- if (a < 0.5) discard;
54
-
55
- #if defined(dRenderVariant_color)
56
- material.a *= a;
57
-
58
- // add border
59
- float t = 0.5 + uBorderWidth;
60
- if (uBorderWidth > 0.0 && sdf < t) {
61
- material.xyz = mix(uBorderColor, material.xyz, smoothstep(t - w, t, sdf));
62
- }
63
- #endif
64
- }
65
-
66
- #if defined(dRenderVariant_pick)
67
- #include check_picking_alpha
68
- #ifdef requiredDrawBuffers
69
- gl_FragColor = vObject;
70
- gl_FragData[1] = vInstance;
71
- gl_FragData[2] = vGroup;
72
- gl_FragData[3] = packDepthToRGBA(fragmentDepth);
73
- #else
74
- gl_FragColor = vColor;
75
- #endif
76
- #elif defined(dRenderVariant_depth)
77
- gl_FragColor = material;
78
- #elif defined(dRenderVariant_marking)
79
- gl_FragColor = material;
80
- #elif defined(dRenderVariant_color)
81
- gl_FragColor = material;
82
-
83
- #include apply_marker_color
84
- #include apply_fog
85
- #include wboit_write
86
- #include dpoit_write
87
- #endif
88
- }
6
+ export const text_frag = `
7
+ precision highp float;
8
+ precision highp int;
9
+
10
+ #include common
11
+ #include common_frag_params
12
+ #include color_frag_params
13
+ #include common_clip
14
+
15
+ uniform sampler2D tFont;
16
+
17
+ uniform vec3 uBorderColor;
18
+ uniform float uBorderWidth;
19
+ uniform vec3 uBackgroundColor;
20
+ uniform float uBackgroundOpacity;
21
+
22
+ varying vec2 vTexCoord;
23
+
24
+ const float smoothness = 32.0;
25
+ const float gamma = 2.2;
26
+
27
+ void main2(){
28
+ gl_FragColor = vec4(1.0, 0.0, 0.0, 1.0);
29
+ }
30
+
31
+ void main(){
32
+ #include fade_lod
33
+ #include clip_pixel
34
+
35
+ float fragmentDepth = gl_FragCoord.z;
36
+ #include assign_material_color
37
+
38
+ if (vTexCoord.x > 1.0) {
39
+ #if defined(dRenderVariant_color)
40
+ material = vec4(uBackgroundColor, uBackgroundOpacity * material.a);
41
+ #endif
42
+ } else {
43
+ // retrieve signed distance
44
+ float sdf = texture2D(tFont, vTexCoord).a + uBorderWidth;
45
+
46
+ // perform adaptive anti-aliasing of the edges
47
+ float w = clamp(smoothness * (abs(dFdx(vTexCoord.x)) + abs(dFdy(vTexCoord.y))), 0.0, 0.5);
48
+ float a = clamp(0.0, 1.0, smoothstep(0.5 - w, 0.5 + w, sdf));
49
+
50
+ // gamma correction for linear attenuation
51
+ a = pow(a, 1.0 / gamma);
52
+
53
+ if (a < 0.5) discard;
54
+
55
+ #if defined(dRenderVariant_color)
56
+ // add border
57
+ float t = 0.5 + uBorderWidth;
58
+ if (uBorderWidth > 0.0 && sdf < t) {
59
+ material.xyz = mix(uBorderColor, material.xyz, smoothstep(t - w, t, sdf));
60
+ }
61
+ #endif
62
+ }
63
+
64
+ #include check_transparency
65
+
66
+ #if defined(dRenderVariant_pick)
67
+ #include check_picking_alpha
68
+ #ifdef requiredDrawBuffers
69
+ gl_FragColor = vObject;
70
+ gl_FragData[1] = vInstance;
71
+ gl_FragData[2] = vGroup;
72
+ gl_FragData[3] = packDepthToRGBA(fragmentDepth);
73
+ #else
74
+ gl_FragColor = vColor;
75
+ #endif
76
+ #elif defined(dRenderVariant_depth)
77
+ gl_FragColor = material;
78
+ #elif defined(dRenderVariant_marking)
79
+ gl_FragColor = material;
80
+ #elif defined(dRenderVariant_emissive)
81
+ gl_FragColor = material;
82
+ #elif defined(dRenderVariant_color)
83
+ gl_FragColor = material;
84
+
85
+ #include apply_marker_color
86
+ #include apply_fog
87
+ #include wboit_write
88
+ #include dpoit_write
89
+ #endif
90
+ }
89
91
  `;
@@ -3,89 +3,89 @@
3
3
  *
4
4
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
5
5
  */
6
- export const text_vert = `
7
- precision highp float;
8
- precision highp int;
9
-
10
- #include common
11
- #include read_from_texture
12
- #include common_vert_params
13
- #include color_vert_params
14
- #include size_vert_params
15
- #include common_clip
16
-
17
- uniform mat4 uModelView;
18
-
19
- attribute vec3 aPosition;
20
- attribute vec2 aMapping;
21
- attribute float aDepth;
22
- attribute vec2 aTexCoord;
23
- attribute mat4 aTransform;
24
- attribute float aInstance;
25
- attribute float aGroup;
26
-
27
- uniform float uOffsetX;
28
- uniform float uOffsetY;
29
- uniform float uOffsetZ;
30
-
31
- uniform float uIsOrtho;
32
- uniform float uPixelRatio;
33
- uniform vec4 uViewport;
34
-
35
- varying vec2 vTexCoord;
36
-
37
- #include matrix_scale
38
-
39
- void main(void){
40
- #include assign_group
41
- #include assign_color_varying
42
- #include assign_marker_varying
43
- #include assign_clipping_varying
44
- #include assign_size
45
-
46
- vTexCoord = aTexCoord;
47
-
48
- float scale = matrixScale(uModelView);
49
-
50
- float offsetX = uOffsetX * scale;
51
- float offsetY = uOffsetY * scale;
52
- float offsetZ = (uOffsetZ + aDepth * 0.95) * scale;
53
-
54
- vec4 position4 = vec4(aPosition, 1.0);
55
- vec4 mvPosition = uModelView * aTransform * position4;
56
-
57
- vModelPosition = (uModel * aTransform * position4).xyz; // for clipping in frag shader
58
-
59
- // TODO
60
- // #ifdef FIXED_SIZE
61
- // if (ortho) {
62
- // scale /= pixelRatio * ((uViewport.w / 2.0) / -uCameraPosition.z) * 0.1;
63
- // } else {
64
- // scale /= pixelRatio * ((uViewport.w / 2.0) / -mvPosition.z) * 0.1;
65
- // }
66
- // #endif
67
-
68
- vec4 mvCorner = vec4(mvPosition.xyz, 1.0);
69
-
70
- if (vTexCoord.x == 10.0) { // indicates background plane
71
- // move a bit to the back, taking distance to camera into account to avoid z-fighting
72
- offsetZ -= 0.001 * distance(uCameraPosition, (uProjection * mvCorner).xyz);
73
- }
74
-
75
- mvCorner.xy += aMapping * size * scale;
76
- mvCorner.x += offsetX;
77
- mvCorner.y += offsetY;
78
-
79
- if (uIsOrtho == 1.0) {
80
- mvCorner.z += offsetZ;
81
- } else {
82
- mvCorner.xyz += normalize(-mvCorner.xyz) * offsetZ;
83
- }
84
-
85
- gl_Position = uProjection * mvCorner;
86
-
87
- vViewPosition = -mvCorner.xyz;
88
-
89
- #include clip_instance
90
- }
6
+ export const text_vert = `
7
+ precision highp float;
8
+ precision highp int;
9
+
10
+ #include common
11
+ #include read_from_texture
12
+ #include common_vert_params
13
+ #include color_vert_params
14
+ #include size_vert_params
15
+ #include common_clip
16
+
17
+ uniform mat4 uModelView;
18
+
19
+ attribute vec3 aPosition;
20
+ attribute vec2 aMapping;
21
+ attribute float aDepth;
22
+ attribute vec2 aTexCoord;
23
+ attribute mat4 aTransform;
24
+ attribute float aInstance;
25
+ attribute float aGroup;
26
+
27
+ uniform float uOffsetX;
28
+ uniform float uOffsetY;
29
+ uniform float uOffsetZ;
30
+
31
+ uniform float uIsOrtho;
32
+ uniform float uPixelRatio;
33
+ uniform vec4 uViewport;
34
+
35
+ varying vec2 vTexCoord;
36
+
37
+ #include matrix_scale
38
+
39
+ void main(void){
40
+ #include assign_group
41
+ #include assign_color_varying
42
+ #include assign_marker_varying
43
+ #include assign_clipping_varying
44
+ #include assign_size
45
+
46
+ vTexCoord = aTexCoord;
47
+
48
+ float scale = matrixScale(uModelView);
49
+
50
+ float offsetX = uOffsetX * scale;
51
+ float offsetY = uOffsetY * scale;
52
+ float offsetZ = (uOffsetZ + aDepth * 0.95) * scale;
53
+
54
+ vec4 position4 = vec4(aPosition, 1.0);
55
+ vec4 mvPosition = uModelView * aTransform * position4;
56
+
57
+ vModelPosition = (uModel * aTransform * position4).xyz; // for clipping in frag shader
58
+
59
+ // TODO
60
+ // #ifdef FIXED_SIZE
61
+ // if (ortho) {
62
+ // scale /= pixelRatio * ((uViewport.w / 2.0) / -uCameraPosition.z) * 0.1;
63
+ // } else {
64
+ // scale /= pixelRatio * ((uViewport.w / 2.0) / -mvPosition.z) * 0.1;
65
+ // }
66
+ // #endif
67
+
68
+ vec4 mvCorner = vec4(mvPosition.xyz, 1.0);
69
+
70
+ if (vTexCoord.x == 10.0) { // indicates background plane
71
+ // move a bit to the back, taking distance to camera into account to avoid z-fighting
72
+ offsetZ -= 0.001 * distance(uCameraPosition, (uProjection * mvCorner).xyz);
73
+ }
74
+
75
+ mvCorner.xy += aMapping * size * scale;
76
+ mvCorner.x += offsetX;
77
+ mvCorner.y += offsetY;
78
+
79
+ if (uIsOrtho == 1.0) {
80
+ mvCorner.z += offsetZ;
81
+ } else {
82
+ mvCorner.xyz += normalize(-mvCorner.xyz) * offsetZ;
83
+ }
84
+
85
+ gl_Position = uProjection * mvCorner;
86
+
87
+ vViewPosition = -mvCorner.xyz;
88
+
89
+ #include clip_instance
90
+ }
91
91
  `;
@@ -3,50 +3,50 @@
3
3
  *
4
4
  * @author David Sehnal <david.sehnal@gmail.com>
5
5
  */
6
- export const grid3dTemplate_frag = `
7
- precision highp float;
8
- precision highp int;
9
- precision highp sampler2D;
10
-
11
- uniform vec2 uQuadShift;
12
- uniform vec3 uDimensions;
13
- uniform vec3 uMin;
14
- uniform vec3 uDelta;
15
- uniform bool uLittleEndian;
16
- uniform float uWidth;
17
-
18
- #ifdef CUMULATIVE
19
- uniform sampler2D tCumulativeSum;
20
- #endif
21
-
22
- {UNIFORMS}
23
-
24
- {UTILS}
25
-
26
- #include float_to_rgba
27
- #ifdef CUMULATIVE
28
- #include rgba_to_float
29
- #endif
30
-
31
- float intDiv(float a, float b) { return float(int(a) / int(b)); }
32
- float intMod(float a, float b) { return a - b * float(int(a) / int(b)); }
33
-
34
- void main(void) {
35
- float offset = floor(gl_FragCoord.x) + floor(gl_FragCoord.y) * uWidth;
36
-
37
- // axis order fast to slow Z, Y, X
38
- // TODO: support arbitrary axis orders?
39
- float k = intMod(offset, uDimensions.z), kk = intDiv(offset, uDimensions.z);
40
- float j = intMod(kk, uDimensions.y);
41
- float i = intDiv(kk, uDimensions.y);
42
-
43
- vec3 xyz = uMin + uDelta * vec3(i, j, k);
44
-
45
- {MAIN}
46
-
47
- #ifdef CUMULATIVE
48
- float current = rgbaToFloat(texture2D(tCumulativeSum, gl_FragCoord.xy / vec2(uWidth, uWidth)), uLittleEndian);
49
- #endif
50
- gl_FragColor = floatToRgba({RETURN}, uLittleEndian);
51
- }
6
+ export const grid3dTemplate_frag = `
7
+ precision highp float;
8
+ precision highp int;
9
+ precision highp sampler2D;
10
+
11
+ uniform vec2 uQuadShift;
12
+ uniform vec3 uDimensions;
13
+ uniform vec3 uMin;
14
+ uniform vec3 uDelta;
15
+ uniform bool uLittleEndian;
16
+ uniform float uWidth;
17
+
18
+ #ifdef CUMULATIVE
19
+ uniform sampler2D tCumulativeSum;
20
+ #endif
21
+
22
+ {UNIFORMS}
23
+
24
+ {UTILS}
25
+
26
+ #include float_to_rgba
27
+ #ifdef CUMULATIVE
28
+ #include rgba_to_float
29
+ #endif
30
+
31
+ float intDiv(float a, float b) { return float(int(a) / int(b)); }
32
+ float intMod(float a, float b) { return a - b * float(int(a) / int(b)); }
33
+
34
+ void main(void) {
35
+ float offset = floor(gl_FragCoord.x) + floor(gl_FragCoord.y) * uWidth;
36
+
37
+ // axis order fast to slow Z, Y, X
38
+ // TODO: support arbitrary axis orders?
39
+ float k = intMod(offset, uDimensions.z), kk = intDiv(offset, uDimensions.z);
40
+ float j = intMod(kk, uDimensions.y);
41
+ float i = intDiv(kk, uDimensions.y);
42
+
43
+ vec3 xyz = uMin + uDelta * vec3(i, j, k);
44
+
45
+ {MAIN}
46
+
47
+ #ifdef CUMULATIVE
48
+ float current = rgbaToFloat(texture2D(tCumulativeSum, gl_FragCoord.xy / vec2(uWidth, uWidth)), uLittleEndian);
49
+ #endif
50
+ gl_FragColor = floatToRgba({RETURN}, uLittleEndian);
51
+ }
52
52
  `;
@@ -1,5 +1,5 @@
1
1
  /**
2
- * Copyright (c) 2018-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
2
+ * Copyright (c) 2018-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
4
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
5
5
  */
@@ -1,5 +1,5 @@
1
1
  /**
2
- * Copyright (c) 2018-2023 mol* contributors, licensed under MIT, See LICENSE file for more info.
2
+ * Copyright (c) 2018-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
4
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
5
5
  */
@@ -19,6 +19,7 @@ import { assign_material_color } from './shader/chunks/assign-material-color.gls
19
19
  import { assign_position } from './shader/chunks/assign-position.glsl';
20
20
  import { assign_size } from './shader/chunks/assign-size.glsl';
21
21
  import { check_picking_alpha } from './shader/chunks/check-picking-alpha.glsl';
22
+ import { check_transparency } from './shader/chunks/check-transparency.glsl';
22
23
  import { clip_instance } from './shader/chunks/clip-instance.glsl';
23
24
  import { clip_pixel } from './shader/chunks/clip-pixel.glsl';
24
25
  import { color_frag_params } from './shader/chunks/color-frag-params.glsl';
@@ -53,6 +54,7 @@ const ShaderChunks = {
53
54
  assign_position,
54
55
  assign_size,
55
56
  check_picking_alpha,
57
+ check_transparency,
56
58
  clip_instance,
57
59
  clip_pixel,
58
60
  color_frag_params,
@@ -127,13 +129,17 @@ function ignoreDefine(name, variant, defines) {
127
129
  }
128
130
  }
129
131
  else {
130
- return [
132
+ const ignore = [
131
133
  'dColorType', 'dUsePalette',
132
134
  'dLightCount', 'dXrayShaded',
133
135
  'dOverpaintType', 'dOverpaint',
134
136
  'dSubstanceType', 'dSubstance',
135
137
  'dColorMarker',
136
- ].includes(name);
138
+ ];
139
+ if (variant !== 'emissive') {
140
+ ignore.push('dEmissiveType', 'dEmissive');
141
+ }
142
+ return ignore.includes(name);
137
143
  }
138
144
  return false;
139
145
  }
@@ -255,22 +261,22 @@ function getGlsl100FragPrefix(extensions, shaderExtensions) {
255
261
  }
256
262
  return prefix.join('\n') + '\n';
257
263
  }
258
- const glsl300VertPrefixCommon = `
259
- #define attribute in
260
- #define varying out
261
- #define texture2D texture
264
+ const glsl300VertPrefixCommon = `
265
+ #define attribute in
266
+ #define varying out
267
+ #define texture2D texture
262
268
  `;
263
- const glsl300FragPrefixCommon = `
264
- #define varying in
265
- #define texture2D texture
266
- #define textureCube texture
267
- #define texture2DLodEXT textureLod
268
- #define textureCubeLodEXT textureLod
269
-
270
- #define gl_FragColor out_FragData0
271
- #define gl_FragDepthEXT gl_FragDepth
272
-
273
- #define depthTextureSupport
269
+ const glsl300FragPrefixCommon = `
270
+ #define varying in
271
+ #define texture2D texture
272
+ #define textureCube texture
273
+ #define texture2DLodEXT textureLod
274
+ #define textureCubeLodEXT textureLod
275
+
276
+ #define gl_FragColor out_FragData0
277
+ #define gl_FragDepthEXT gl_FragDepth
278
+
279
+ #define depthTextureSupport
274
280
  `;
275
281
  function getGlsl300VertPrefix(extensions, shaderExtensions) {
276
282
  const prefix = [
@@ -426,19 +426,19 @@ export function getNoNonInstancedActiveAttribs(gl) {
426
426
  return false;
427
427
  }
428
428
  //
429
- const TextureTestVertShader = `
430
- attribute vec4 aPosition;
431
-
432
- void main() {
433
- gl_Position = aPosition;
429
+ const TextureTestVertShader = `
430
+ attribute vec4 aPosition;
431
+
432
+ void main() {
433
+ gl_Position = aPosition;
434
434
  }`;
435
- const TextureTestFragShader = `
436
- precision mediump float;
437
- uniform vec4 uColor;
438
- uniform sampler2D uTexture;
439
-
440
- void main() {
441
- gl_FragColor = texture2D(uTexture, vec2(0.5, 0.5)) * uColor;
435
+ const TextureTestFragShader = `
436
+ precision mediump float;
437
+ uniform vec4 uColor;
438
+ uniform sampler2D uTexture;
439
+
440
+ void main() {
441
+ gl_FragColor = texture2D(uTexture, vec2(0.5, 0.5)) * uColor;
442
442
  }`;
443
443
  const TextureTestTexCoords = new Float32Array([
444
444
  -1.0, -1.0, 1.0, -1.0, -1.0, 1.0, -1.0, 1.0, 1.0, -1.0, 1.0, 1.0
@@ -38,9 +38,10 @@ declare const GraphicsRenderVariant: {
38
38
  pick: string;
39
39
  depth: string;
40
40
  marking: string;
41
+ emissive: string;
41
42
  };
42
43
  export type GraphicsRenderVariant = keyof typeof GraphicsRenderVariant;
43
- export declare const GraphicsRenderVariants: ("color" | "depth" | "pick" | "marking")[];
44
+ export declare const GraphicsRenderVariants: ("color" | "emissive" | "depth" | "pick" | "marking")[];
44
45
  declare const ComputeRenderVariant: {
45
46
  compute: string;
46
47
  };
@@ -48,7 +49,7 @@ export type ComputeRenderVariant = keyof typeof ComputeRenderVariant;
48
49
  export declare const ComputeRenderVariants: "compute"[];
49
50
  export type Transparency = 'blended' | 'wboit' | 'dpoit' | undefined;
50
51
  export type GraphicsRenderItem = RenderItem<GraphicsRenderVariant>;
51
- export declare function createGraphicsRenderItem(ctx: WebGLContext, drawMode: DrawMode, shaderCode: ShaderCode, schema: RenderableSchema, values: RenderableValues, materialId: number, transparency: Transparency): RenderItem<"color" | "depth" | "pick" | "marking">;
52
+ export declare function createGraphicsRenderItem(ctx: WebGLContext, drawMode: DrawMode, shaderCode: ShaderCode, schema: RenderableSchema, values: RenderableValues, materialId: number, transparency: Transparency): RenderItem<"color" | "emissive" | "depth" | "pick" | "marking">;
52
53
  export type ComputeRenderItem = RenderItem<ComputeRenderVariant>;
53
54
  export declare function createComputeRenderItem(ctx: WebGLContext, drawMode: DrawMode, shaderCode: ShaderCode, schema: RenderableSchema, values: RenderableValues, materialId?: number): RenderItem<"compute">;
54
55
  /**
@@ -29,7 +29,7 @@ export function getDrawMode(ctx, drawMode) {
29
29
  }
30
30
  }
31
31
  //
32
- const GraphicsRenderVariant = { color: '', pick: '', depth: '', marking: '' };
32
+ const GraphicsRenderVariant = { color: '', pick: '', depth: '', marking: '', emissive: '' };
33
33
  export const GraphicsRenderVariants = Object.keys(GraphicsRenderVariant);
34
34
  const ComputeRenderVariant = { compute: '' };
35
35
  export const ComputeRenderVariants = Object.keys(ComputeRenderVariant);
@@ -1,5 +1,5 @@
1
1
  /**
2
- * Copyright (c) 2017 mol* contributors, licensed under MIT, See LICENSE file for more info.
2
+ * Copyright (c) 2017-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
4
  * Adapted from CIFTools.js (https://github.com/dsehnal/CIFTools.js; MIT) and MMTF (https://github.com/rcsb/mmtf-javascript/; MIT)
5
5
  *
@@ -1,5 +1,5 @@
1
1
  /**
2
- * Copyright (c) 2017 mol* contributors, licensed under MIT, See LICENSE file for more info.
2
+ * Copyright (c) 2017-2024 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
4
  * Adapted from CIFTools.js (https://github.com/dsehnal/CIFTools.js; MIT) and MMTF (https://github.com/rcsb/mmtf-javascript/; MIT)
5
5
  *
@@ -45,8 +45,11 @@ export var ArrayEncoder;
45
45
  ArrayEncoder.by = by;
46
46
  function fromEncoding(encoding) {
47
47
  let e = by(getProvider(encoding[0]));
48
- for (let i = 1; i < encoding.length; i++)
48
+ for (let i = 1; i < encoding.length; i++) {
49
+ if (encoding[i - 1].kind === 'IntegerPacking')
50
+ break;
49
51
  e = e.and(getProvider(encoding[i]));
52
+ }
50
53
  return e;
51
54
  }
52
55
  ArrayEncoder.fromEncoding = fromEncoding;
@@ -1,7 +1,7 @@
1
1
  /**
2
2
  * Copyright (c) 2017-2022 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
- * Code-generated 'BIRD' schema file. Dictionary versions: mmCIF 5.386, IHM 1.25, MA 1.4.6.
4
+ * Code-generated 'BIRD' schema file. Dictionary versions: mmCIF 5.391, IHM 1.25, MA 1.4.6.
5
5
  *
6
6
  * @author molstar/ciftools package
7
7
  */
@@ -1,7 +1,7 @@
1
1
  /**
2
2
  * Copyright (c) 2017-2022 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
- * Code-generated 'BIRD' schema file. Dictionary versions: mmCIF 5.386, IHM 1.25, MA 1.4.6.
4
+ * Code-generated 'BIRD' schema file. Dictionary versions: mmCIF 5.391, IHM 1.25, MA 1.4.6.
5
5
  *
6
6
  * @author molstar/ciftools package
7
7
  */